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BioPortal Architecture and Plans November 29, 2011

This article explores the current and planned architecture of BioPortal, including its development and future plans. It covers topics such as ontology recommender, access control, support for OWL 2 and RDF triple-store, improved ontology visualization, and more. The article also mentions potential future developments such as moving the infrastructure to the cloud and better integration with ontology editors.

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BioPortal Architecture and Plans November 29, 2011

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  1. BioPortal Architecture and PlansNovember 29, 2011 Ray Fergerson NCBO Project Director Stanford University ray.fergerson@stanford.edu

  2. Outline • Current Architecture • Planned Architecture • Plans • Current Development • Future Development • Not on the radar

  3. Current Architecture BioPortal BioPortal BioPortal Other Applications REST Layer Protégé LexGrid Hierarchy Cache Resource Index Ontologies & Metadata

  4. Planned Architecture BioPortal BioPortal BioPortal Other Applications REST Layer RDF Triplestore (Ontologies & Metadata) Hierarchy Cache Resource Index

  5. Current Development (I) • Ontology Recommender (Done) • Accept a paragraph or two of text • Analyze its use of ontology terms • Recommend closely matched ontologies • Access control for ontologies (Done) • Private: Submitter designates user access • Licensed: Submitter provides license for user acceptance • Improved support for OWL 2 (Done) • Support for RDF triple-store (public alpha, Q3) • Generate automatic mappings between all terms in all ontologies (Q1)

  6. Current Development (II) • MyBioPortal: limiting visible ontologies (Q1) • Alternate entry points to limit visible ontologies (Q1) • Improved ontology visualization (Q2) • Removal of all usage of Flash technology (Q1) • Allow installations to add/remove tabs (Done) • Common Terminology Services v2 (CTS2) interface (proposed OMG standard) for BioPortal (private alpha, Q1)

  7. Future Development • Definite • Move infrastructure to cloud • Better integration with ontology editors • Possible • UML support

  8. No Current Plans • Workflows • (beyond ontology status & notes) • Common Logic • Other file/model formats • Rules • Reasoning over ontologies

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